ArticleJournal of clinical microbiology2009
Direct 16S rRNA gene sequencing from clinical specimens, with special focus on polybacterial samples and interpretation of mixed DNA chromatograms.
Article in Journal of clinical microbiology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
- Article
- Optimization of 16S RNA Sequencing and Evaluation of Metagenomic Analysis with Kraken 2 and KrakenUniq.Diagnostics (Basel, Switzerland) · 2025Article
- Nationwide multicentre study of Nanopore long-read sequencing for 16S rRNA-species identification.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2025Article
- Microbiological diagnosis of pleural infections: a comparative evaluation of a novel syndromic real-time PCR panel.Microbiology spectrum · 2024Article
- Harnessing Variabilities in Digital Melt Curves for Accurate Identification of Bacteria.Analytical chemistry · 2023Article
- Advances in the Microbiological Diagnosis of Prosthetic Joint Infections.Diagnostics (Basel, Switzerland) · 2023Review
- Article
- Prospective Comparison Between Shotgun Metagenomics and Sanger Sequencing of the 16S rRNA Gene for the Etiological Diagnosis of Infections.Frontiers in microbiology · 2022Article
- Article
- Rapid, Inexpensive Measurement of Synthetic Bacterial Community Composition by Sanger Sequencing of Amplicon Mixtures.iScience · 2020Article
- Bacteraemia withAccess microbiology · 2020Article
- The bacteriology in adult patients with pneumonia and parapneumonic effusions: increased yield with DNA sequencing method.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2019Article
- Molecular Techniques Complement Culture-Based Assessment of Bacteria Composition in Mixed Biofilms of Urinary Tract Catheter-Related Samples.Frontiers in microbiology · 2019Article
- Species Level Description of the Human Ileal Bacterial Microbiota.Scientific reports · 2018Article
- Temporal trends of β-haemolytic streptococcal osteoarticular infections in western Norway.BMC infectious diseases · 2016Article
- High prevalence of multidrug resistant Enterobacteriaceae isolated from outpatient urine samples but not the hospital environment in Bo, Sierra Leone.BMC infectious diseases · 2016Article
- Development and evaluation of a novel fast broad-range 16S ribosomal DNA PCR and sequencing assay for diagnosis of bacterial infective endocarditis: multi-year experience in a large Canadian healthcare zone and a literature review.BMC infectious diseases · 2016Review
- Article
- Cultivation-independent approach for the direct detection of bacteria in human clinical specimens as a tool for analysing culture-negative samples: a prospective study.SpringerPlus · 2016Article
- New tricks from an old cow: infective endocarditis caused by Streptococcus dysgalactiae subsp. dysgalactiae.Journal of clinical microbiology · 2015Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
RipSeq (iSentio, Bergen, Norway) is a web-based application for the analysis of mixed DNA chromatograms. It opens the possibility to analyze chromatograms obtained by direct 16S rRNA gene sequencing from polybacterial human clinical samples. In this study, we used direct 16S rRNA gene sequencing to investigate 264 samples from a wide range of suspected human bacterial infections. The sequence-based identification was compared with the results from routine culture-based identification. A total of 151 samples were positive by the first PCR, producing 85 pure and 66 mixed DNA chromatograms. All mixed chromatograms were analyzed by RipSeq, although seven were so complex that only the dominant bacterial sequences could be identified. In general, sequence-based identification detected a larger number of species than did culture for samples from patients who had received antibiotics prior to sample collection and for samples containing anaerobic bacteria. RipSeq made it possible to apply this supplementary diagnostic tool to typical polybacterial specimens, such as internal abscesses, pleural fluids, and bile.
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